The BDTNP is providing software developed to process, visualize and analyze 3D gene expression data.
- PointCloudXplore: Visualization and analysis of the data in PointCloud and Virtual Embryo Files.
Image analysis methods to generate PointCloud files that contain geometric data for each nucleus (position, volume, etc.),
and the measured levels of gene expression in a single embryo.
Registration methods to place gene expression data from many embryos into a VirtualEmbryo file,
to allow comparison between the expression patterns of more than two or three genes.
Nonparametric Identification of Regulatory Interactions (NODE):
A method that determines the correlation between transcription factor protein concentrations
and temporal changes in the mRNA expression of putative target genes for small clusters of cells
throughout the embryo.
- Biological Imaging Database (BID):
A relational database, and web-based user interface, for tracking 3D gene expression experiments.
The source code and instructions are available upon request.